Sequence
atgc intronic sequence ATGC exonic sequencegtcagtccttcagttttcctgcaattcatggttctggaattgtaagtctgattatattcctaacattttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 12
gtcagtccttcagttttcctgcaattcatggttctggaattgtaagtctgattatattcctaacattttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
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gtgagctctttga-----ctgcaaatcatgtctatcgacctg--gttctgattttaga--taaaattt--cagGTTGGAGCATTCTCTGTATTGAAGGAGCTTGTTGTTGTACTGCCAGACTGTCTTGCTGATCATATTGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA17G00570.1 (Glycine max), 3'ss of exon 12
--gtcagtccttcagttttcctgcaattcatggttctggaattgtaagtctgattatattcctaaca--ttttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
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gtagtagtcatcaaaagttg--ataattgatttcgactaaattatct-ccagattttaagcatcattgtctttgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTACCCAACTGTCTTGCAGATCACATTGGGTCACTCATTCCAGGAATTGAAAAAGCATTGA
upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 12
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 12
----gtcagtccttcagttttcctgcaattcatggttctggaattgtaagtctgattatattcctaacattttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
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gtatgaaagtgttaaacattctttttggtt--tggttcctgt-ttgatactttcataacttctttcatatctgt-agGTTGGAGCATTCTCTGTTTTGAGAGAACTTGTGGTTGTCCTGCCTGACTGTCTTGCTGATCATATTGGTTCACTTGTTCCTGGAATTGAAAGGGCGCTAA
upper sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 12
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 13
--gtcagtccttcagttttcctgcaattcatg-gttctggaattgtaagtctgattatattcctaacattttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
||| | ||| | || || || || || | | | | |||| | ||| | | ||||||| ||||||||||| |||| |||||||||||||| || |||||||| || || || || | || |||||| || | || || || || || | |
gtacgagtttcctgatattcttttaaaggatctgtgatgtaaccattggaaatttaacattcatttcatctgc-agGTTGGTGCATTTTCAGTTTTGAAAGAGCTTGTGGTTGTCTTGCCAGACTGCCTGGCAGACCACATTGGATCACTTATTTCGGGAATCGAAAAAGCGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcaattcatggttctggaattgtaagtctgattatattcctaacattttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
tcctaac putative branch site (score: 1)
cattttcc CT-rich tract
tgattatatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtccttcagttttcctgcaattcatggttctggaattgtaagtctgattatattcctaacattttccagGTTGGGGCATTTTCAGTACTGAAGGAGCTTGTGGTTGTATTACCAGACTGTCTTGCTGATCATTTCGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT